The Homepage
The homepage gives an overview of medInria. From here the user has access to different areas: the workspaces, a quick access menu, and two settings and command toolbars.
The Workspaces
Workspaces are separated into several types:
- Basic (non imagery workspaces)
- Methodology (by type of imagery processing)
To switch: you can click on a workspace list button, or use the “Quick access menu”, or click Ctrl+Space to show a graphic workspace list.
The workspaces:
- Browser Area: the browser allows you to search and select data that is going to be used by medInria.
- Visualization: the Visualization workspace serves as the foundation for each imagery workspace: every component of this workspace can be found in all imagery workspaces. It is used to quickly display 2D, 3D or 4D rendering. It has a database access and a tabbed visualization area. It is also possible to adjust the visualization layout and properties.
- Diffusion : the Diffusion workspace is where diffusion MRI is processed and visualized. It can control tensor and fiber visualization properties, it is also possible to run tractography algorithms and it provides some tools to select fiber bundles.
- Filtering : the Filtering workspace is an handy interface of useful image processing filters, it allows you to visualize the input image and compare it with the output image.
- Meshing : the Meshing workspace is dedicated to mesh processing through several toolboxes, you’ll find here tools to create, manipulate or remesh your data.
- Reformat : the Reformat workspace aims to work on dimension, spacing, orientation of a volume through several toolboxes.
- Registration : the Registration workspace is an interface designed to run several registration algorithms on different types of data. It has two convenient layouts to load and compare images before and after the registration.
- Segmentation : the Segmentation workspace groups several segmentation toolboxes to segment data.
The settings toolbar
On the lower right you can find:
- Settings: choose start up and database settings. The changes are effective after saving.
- Plugins: gives a detailed view of which plugins were successfully loaded and which weren’t.
- About: a short summary of the application and its contributors, the licenses and release notes.
- Log: opens a tool to display the logs of the application. Can be useful for debug.
- Help: a link to the online user documentation.
Settings button widget
The “Start Up” tab of the Settings button allows to customize your application. You can choose the behavior at launch: fullscreen or not, which workspace is displayed, and your segmentation specialty.
To move your database, just copy your folder at a new location (it must contain the db file). Then modify the Database location accordingly in the “Database” tab in Settings.
The “Development” tab allows to switch to developer mode.
Make sure to save the settings, and reload the application.
The command toolbar
Displayed everywhere in the application the bottom toolbar allows to:
- Adjust views size
- Take a screenshot of the views
- Export a video of the views
- Fullscreen mode
- Close the application
Buttons related to views are disabled in Browser, Composer and the homepage.
Export a screenshot of your views
- Click on the screenshot button to export your current view.
- If you want to export multiple views at the same time, Ctrl+click on the unselected view (to get a select border around it), then use the screenshot button.
Export a video of your views
- You can export a video of your current view. Your video frame steps could be based on the time of your original 4D data, or by a rotation of your mesh, or based on the slices of your 3D data.
The Quick Access Menu
The “Quick access menu” allows to switch between workspaces or run the Search tool.
You can click on the Search button to search a specific toolbox in the application. Just enter the name you’re looking for and double-click on the chosen item. The targeted toolbox is going to be opened in the right workspace.
